Job ID = 9161787 sra ファイルのダウンロード中... Completed: 1395032K bytes transferred in 14 seconds (815109K bits/sec), in 1 file, 2 directories. sra ファイルのダウンロードが完了しました。 Read layout: PAIRED fastq に変換中... Written 32440522 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1044175/SRR2045656.sra Written 32440522 spots total rm: cannot remove `[DSE]RR*.fastq': そのようなファイルやディレクトリはありません fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:24:45 32440522 reads; of these: 32440522 (100.00%) were paired; of these: 5176279 (15.96%) aligned concordantly 0 times 24595168 (75.82%) aligned concordantly exactly 1 time 2669075 (8.23%) aligned concordantly >1 times ---- 5176279 pairs aligned concordantly 0 times; of these: 857278 (16.56%) aligned discordantly 1 time ---- 4319001 pairs aligned 0 times concordantly or discordantly; of these: 8638002 mates make up the pairs; of these: 8129635 (94.11%) aligned 0 times 265832 (3.08%) aligned exactly 1 time 242535 (2.81%) aligned >1 times 87.47% overall alignment rate Time searching: 00:24:45 Overall time: 00:24:45 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 24 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 13274136 / 27848093 = 0.4767 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Wed, 28 Jun 2017 05:12:22: # Command line: callpeak -t SRX1044175.bam -f BAM -g 12100000 -n SRX1044175.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1044175.20 # format = BAM # ChIP-seq file = ['SRX1044175.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 28 Jun 2017 05:12:22: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:12:22: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:12:22: # Command line: callpeak -t SRX1044175.bam -f BAM -g 12100000 -n SRX1044175.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1044175.10 # format = BAM # ChIP-seq file = ['SRX1044175.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 28 Jun 2017 05:12:22: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:12:22: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:12:22: # Command line: callpeak -t SRX1044175.bam -f BAM -g 12100000 -n SRX1044175.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1044175.05 # format = BAM # ChIP-seq file = ['SRX1044175.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 28 Jun 2017 05:12:22: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:12:22: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:12:27: 1000000 INFO @ Wed, 28 Jun 2017 05:12:27: 1000000 INFO @ Wed, 28 Jun 2017 05:12:27: 1000000 INFO @ Wed, 28 Jun 2017 05:12:32: 2000000 INFO @ Wed, 28 Jun 2017 05:12:33: 2000000 INFO @ Wed, 28 Jun 2017 05:12:33: 2000000 INFO @ Wed, 28 Jun 2017 05:12:38: 3000000 INFO @ Wed, 28 Jun 2017 05:12:38: 3000000 INFO @ Wed, 28 Jun 2017 05:12:38: 3000000 INFO @ Wed, 28 Jun 2017 05:12:43: 4000000 INFO @ Wed, 28 Jun 2017 05:12:44: 4000000 INFO @ Wed, 28 Jun 2017 05:12:44: 4000000 INFO @ Wed, 28 Jun 2017 05:12:49: 5000000 INFO @ Wed, 28 Jun 2017 05:12:49: 5000000 INFO @ Wed, 28 Jun 2017 05:12:49: 5000000 INFO @ Wed, 28 Jun 2017 05:12:55: 6000000 INFO @ Wed, 28 Jun 2017 05:12:55: 6000000 INFO @ Wed, 28 Jun 2017 05:12:56: 6000000 INFO @ Wed, 28 Jun 2017 05:13:01: 7000000 INFO @ Wed, 28 Jun 2017 05:13:01: 7000000 INFO @ Wed, 28 Jun 2017 05:13:02: 7000000 INFO @ Wed, 28 Jun 2017 05:13:06: 8000000 INFO @ Wed, 28 Jun 2017 05:13:06: 8000000 INFO @ Wed, 28 Jun 2017 05:13:09: 8000000 INFO @ Wed, 28 Jun 2017 05:13:12: 9000000 INFO @ Wed, 28 Jun 2017 05:13:12: 9000000 INFO @ Wed, 28 Jun 2017 05:13:16: 9000000 INFO @ Wed, 28 Jun 2017 05:13:18: 10000000 INFO @ Wed, 28 Jun 2017 05:13:18: 10000000 INFO @ Wed, 28 Jun 2017 05:13:23: 10000000 INFO @ Wed, 28 Jun 2017 05:13:23: 11000000 INFO @ Wed, 28 Jun 2017 05:13:23: 11000000 INFO @ Wed, 28 Jun 2017 05:13:28: 11000000 INFO @ Wed, 28 Jun 2017 05:13:29: 12000000 INFO @ Wed, 28 Jun 2017 05:13:29: 12000000 INFO @ Wed, 28 Jun 2017 05:13:35: 13000000 INFO @ Wed, 28 Jun 2017 05:13:35: 13000000 INFO @ Wed, 28 Jun 2017 05:13:35: 12000000 INFO @ Wed, 28 Jun 2017 05:13:40: 14000000 INFO @ Wed, 28 Jun 2017 05:13:40: 14000000 INFO @ Wed, 28 Jun 2017 05:13:42: 13000000 INFO @ Wed, 28 Jun 2017 05:13:46: 15000000 INFO @ Wed, 28 Jun 2017 05:13:46: 15000000 INFO @ Wed, 28 Jun 2017 05:13:48: 14000000 INFO @ Wed, 28 Jun 2017 05:13:52: 16000000 INFO @ Wed, 28 Jun 2017 05:13:52: 16000000 INFO @ Wed, 28 Jun 2017 05:13:54: 15000000 INFO @ Wed, 28 Jun 2017 05:13:57: 17000000 INFO @ Wed, 28 Jun 2017 05:13:57: 17000000 INFO @ Wed, 28 Jun 2017 05:14:00: 16000000 INFO @ Wed, 28 Jun 2017 05:14:03: 18000000 INFO @ Wed, 28 Jun 2017 05:14:03: 18000000 INFO @ Wed, 28 Jun 2017 05:14:07: 17000000 INFO @ Wed, 28 Jun 2017 05:14:09: 19000000 INFO @ Wed, 28 Jun 2017 05:14:09: 19000000 INFO @ Wed, 28 Jun 2017 05:14:14: 18000000 INFO @ Wed, 28 Jun 2017 05:14:14: 20000000 INFO @ Wed, 28 Jun 2017 05:14:14: 20000000 INFO @ Wed, 28 Jun 2017 05:14:20: 21000000 INFO @ Wed, 28 Jun 2017 05:14:20: 21000000 INFO @ Wed, 28 Jun 2017 05:14:21: 19000000 INFO @ Wed, 28 Jun 2017 05:14:26: 22000000 INFO @ Wed, 28 Jun 2017 05:14:26: 22000000 INFO @ Wed, 28 Jun 2017 05:14:29: 20000000 INFO @ Wed, 28 Jun 2017 05:14:31: 23000000 INFO @ Wed, 28 Jun 2017 05:14:31: 23000000 INFO @ Wed, 28 Jun 2017 05:14:35: 21000000 INFO @ Wed, 28 Jun 2017 05:14:37: 24000000 INFO @ Wed, 28 Jun 2017 05:14:37: 24000000 INFO @ Wed, 28 Jun 2017 05:14:43: 25000000 INFO @ Wed, 28 Jun 2017 05:14:43: 25000000 INFO @ Wed, 28 Jun 2017 05:14:43: 22000000 INFO @ Wed, 28 Jun 2017 05:14:48: 26000000 INFO @ Wed, 28 Jun 2017 05:14:48: 26000000 INFO @ Wed, 28 Jun 2017 05:14:50: 23000000 INFO @ Wed, 28 Jun 2017 05:14:54: 27000000 INFO @ Wed, 28 Jun 2017 05:14:54: 27000000 INFO @ Wed, 28 Jun 2017 05:14:57: 24000000 INFO @ Wed, 28 Jun 2017 05:15:00: 28000000 INFO @ Wed, 28 Jun 2017 05:15:00: 28000000 INFO @ Wed, 28 Jun 2017 05:15:04: 25000000 INFO @ Wed, 28 Jun 2017 05:15:05: 29000000 INFO @ Wed, 28 Jun 2017 05:15:05: 29000000 INFO @ Wed, 28 Jun 2017 05:15:10: 26000000 INFO @ Wed, 28 Jun 2017 05:15:11: 30000000 INFO @ Wed, 28 Jun 2017 05:15:11: 30000000 INFO @ Wed, 28 Jun 2017 05:15:12: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:15:12: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:15:12: #1 total tags in treatment: 14212083 INFO @ Wed, 28 Jun 2017 05:15:12: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:15:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 05:15:12: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:15:12: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:15:12: #1 total tags in treatment: 14212083 INFO @ Wed, 28 Jun 2017 05:15:12: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:15:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 05:15:13: #1 tags after filtering in treatment: 8417276 INFO @ Wed, 28 Jun 2017 05:15:13: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 28 Jun 2017 05:15:13: #1 finished! INFO @ Wed, 28 Jun 2017 05:15:13: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:15:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:15:13: #1 tags after filtering in treatment: 8417276 INFO @ Wed, 28 Jun 2017 05:15:13: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 28 Jun 2017 05:15:13: #1 finished! INFO @ Wed, 28 Jun 2017 05:15:13: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:15:13: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:15:13: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:15:13: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 28 Jun 2017 05:15:13: Process for pairing-model is terminated! cat: SRX1044175.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) INFO @ Wed, 28 Jun 2017 05:15:13: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:15:13: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 28 Jun 2017 05:15:13: Process for pairing-model is terminated! rm: cannot remove `SRX1044175.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1044175.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1044175.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling cat: SRX1044175.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 5 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1044175.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1044175.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1044175.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Wed, 28 Jun 2017 05:15:17: 27000000 INFO @ Wed, 28 Jun 2017 05:15:22: 28000000 INFO @ Wed, 28 Jun 2017 05:15:28: 29000000 INFO @ Wed, 28 Jun 2017 05:15:34: 30000000 INFO @ Wed, 28 Jun 2017 05:15:35: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:15:35: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:15:35: #1 total tags in treatment: 14212083 INFO @ Wed, 28 Jun 2017 05:15:35: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:15:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 05:15:35: #1 tags after filtering in treatment: 8417276 INFO @ Wed, 28 Jun 2017 05:15:35: #1 Redundant rate of treatment: 0.41 INFO @ Wed, 28 Jun 2017 05:15:35: #1 finished! INFO @ Wed, 28 Jun 2017 05:15:35: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:15:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:15:36: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:15:36: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 28 Jun 2017 05:15:36: Process for pairing-model is terminated! cat: SRX1044175.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1044175.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1044175.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1044175.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。